Rh1CG392400

Pentatricopeptide repeat-containing protein At3g29230-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1C
OG0014806
Physical Location & Seq
Reverse (-)
66011055 .. 66012477
1423 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1CG392400.1

Sequence Viewer

Length: 1320 bp
ATGATTCAAAATGCCATGATTAGAGGGTATGATGGAAATGGTCTCTTTGAGCAATGCCTGCACCTGTTCGATGAAATGCCTCAAAGAGGACTCAAACCCCATAACTTCACTTACCCATATGTGTTGAGCTCCTGTTCTAAACTGGGTTGGTTCCGAAAAGGCAAACAAGTGCATTGCCGGATTGTAAAGGATGGGTTTGAGTCCAATCTATCAGTTGCTAATGCCCTTTTCCATTTATACGTTAAAATGGTGGATTTGAGTGATGCCCGCAAGGTGTTTGATGATGTGTCTGTGAAAACTATCGAATTATGGAACCGAATGATTTCACTTTATGTGAGTGCTTGCGATGTTCAGAGTGCAAGGAAACTGTTTGATGTCATGCCTGAAAGGGACATTGTTTCGTGGAATTCGATGGTCACCGGCTATGCTGAAGTAAGGGATGCAGGCAATGCGAGAGATTTGTTTGAGCGGATGCCCGAGAAGGATGTTGTATCATGGACAATAATGATCAGAGTCATGGACAACATGAAGAAGCATTGGATCTCTGTCCAAATGCAATCGGGTGGTGAAGTTCCGGACAAATACACGTTTGTTTCTGTTCTATCGGCTTGTTCTCAGTTGGGTGCTTTAGAATTTGGAAAGTGGGTACACTACTTTATAGAAGACTGGTCTCAGTTTGGAGCCATTTTGGGGACTGCCCTTATCGATATGTATGCAAAGTGCGGCGATATAAATAGAGCTTTCACACTTTTTATCAAGATGGGAAACAGGGATGTATTTTGTTGGAATGTTATGATTAGATCTGTAGCTATCCACGGAAGAACAGAAGACGCCATCAAGATGTACTCATTGATGCAAAAAAAAGGGTTGAAGCCGAATGACTTCACGTTCACTGCTGCTCTCTTCGCTTGTAGCCATGGAGGCTTAGTAAAGGAAGGTGAAAGAATCTTCTATTCCATGGAGAGGGATTTTGGGGTTGAACCAAAACTCCAGCATTATGGCTGCATAATTGACCTACTGAGCCGAAATGGTCAGTTGGAGGAAGCAGTACGTCTATTTAAGGAAATGCCGTATAAGCCTGATATAGCAATATGGGGAGCTTTGCTTGGCGGTTGCAGAGATAGAAGTCACCTTAAATTGGCAGAGGAAGTGATAGAGAAAGCTACAGAGTTGGAAGCAAATGAATCAGGAGTTTATGTGCTCTTGGCTAACATGCATGCCTCGGTAGGGCAATGGCCGGAGGCTCAAAGTGCAAGAGAAATGATGGAAGAAAAGAATATTTGGAAGAACACAGGGCATAGTAATGTTTATGCTTCTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
PPR PPR_2

Protein Analysis

439

Amino Acids

50.11

Weight (kDa)

6.48

Isoelectric Point (pI)

41.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 4 - 47 1.2e-07 PPR repeat family
PPR_2 PF13041 257 - 304 6.8e-12 PPR repeat family
E_motif PF20431 377 - 436 4.1e-09 E motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0014806)

Species Orthologous Gene IDs
fragaria_vesca FvH4_7g29410
malus_domestica MD01G1200000.v1.1 MD07G1267900.v1.1
prunus_persica Prupe.2G293600_v2.0.a1
pyrus_communis pycom01g21010 pycom07g24550
rosa_chinensis RchiOBHm_Chr1g0377181 RchiOBHm_Chr1g0377191
rosa_laevigata RLG00000026538
rosa_multiflora Rmu_ssc0000155.1_g000013 Rmu_ssc0000155.1_g000014
rosa_roxburghii Rroxscaffold_4G00281400
rosa_rugosa Rorug01G0401900
rosa_samantha Rh1AG419300 Rh1BG378400 Rh1CG392400
rosa_wichuraiana Rw1G036780

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 469
AccIII TCCGGA 1 cut(s) 574
AciI CCGC 4 cut(s) 268, 469, 723, 1110
AclWI GGATC 1 cut(s) 548
AcoI YGGCCR 1 cut(s) 1235
AcsI RAATTY 2 cut(s) 406, 632
AcuI CTGAAG 1 cut(s) 450
AcyI GRCGYC 1 cut(s) 831
AfaI GTAC 3 cut(s) 648, 845, 1050
AfiI CCNNNNNNNGG 5 cut(s) 86, 690, 963, 1138, 1227
AflIII ACRYGT 1 cut(s) 585
AgsI TTSAA 3 cut(s) 8, 871, 980
AloI GAACNNNNNNTCC 2 cut(s) 972, 1004
AluBI AGCT 5 cut(s) 129, 740, 809, 1100, 1163
AluI AGCT 5 cut(s) 129, 740, 809, 1100, 1163
Alw21I GWGCWC 2 cut(s) 131, 1203
Alw26I GTCTC 2 cut(s) 47, 675
AlwI GGATC 1 cut(s) 548
Ama87I CYCGRG 1 cut(s) 476
Aor13HI TCCGGA 1 cut(s) 574
AoxI GGCC 1 cut(s) 1235
ApeKI GCWGC 2 cut(s) 896, 1002
ApoI RAATTY 2 cut(s) 406, 632
Asp700I GAANNNNTTC 2 cut(s) 322, 881
AsuHPI GGTGA 4 cut(s) 409, 578, 950, 1121
AvaI CYCGRG 1 cut(s) 476
BanII GRGCYC 1 cut(s) 131
BbsI GAAGAC 2 cut(s) 669, 834
Bbv12I GWGCWC 2 cut(s) 131, 1203
BbvI GCAGC 2 cut(s) 883, 989
BccI CCATC 6 cut(s) 26, 185, 406, 754, 842, 1258
BceAI ACGGC 1 cut(s) 1054
BcgI CGANNNNNNTGC 2 cut(s) 695, 729
BclI TGATCA 1 cut(s) 507
BcoDI GTCTC 2 cut(s) 47, 675
BfmI CTRYAG 2 cut(s) 804, 1164
BglI GCCNNNNNGGC 1 cut(s) 921
BglII AGATCT 1 cut(s) 800
BisI GCNGC 3 cut(s) 724, 897, 1003
BlsI GCNGC 3 cut(s) 725, 898, 1004
BmeT110I CYCGRG 1 cut(s) 476
BmiI GGNNCC 3 cut(s) 152, 314, 682
BmrI ACTGGG 1 cut(s) 152
BmsI GCATC 4 cut(s) 253, 430, 462, 843
BmuI ACTGGG 1 cut(s) 152
BpiI GAAGAC 2 cut(s) 669, 834
BpmI CTGGAG 1 cut(s) 974
Bsa29I ATCGAT 1 cut(s) 705
BsaHI GRCGYC 1 cut(s) 831
BsaI GGTCTC 2 cut(s) 47, 675
BsaJI CCNNGG 4 cut(s) 814, 916, 957, 1221
BsaWI WCCGGW 1 cut(s) 574
BsaXI ACNNNNNCTCC 6 cut(s) 912, 942, 972, 1002, 1182, 1212
Bsc4I CCNNNNNNNGG 5 cut(s) 86, 690, 963, 1138, 1227
Bse118I RCCGGY 1 cut(s) 419
Bse1I ACTGG 2 cut(s) 147, 671
Bse3DI GCAATG 4 cut(s) 59, 172, 454, 1238
BseAI TCCGGA 1 cut(s) 574
BseCI ATCGAT 1 cut(s) 705
BseDI CCNNGG 4 cut(s) 814, 916, 957, 1221
BseGI GGATG 5 cut(s) 196, 445, 477, 490, 778
BseLI CCNNNNNNNGG 5 cut(s) 86, 690, 963, 1138, 1227
BseMI GCAATG 4 cut(s) 59, 172, 454, 1238
BseMII CTCAG 3 cut(s) 629, 686, 1010
BseNI ACTGG 2 cut(s) 147, 671
BseXI GCAGC 2 cut(s) 883, 989
BsgI GTGCAG 1 cut(s) 44
BshFI GGCC 1 cut(s) 1237
BshVI ATCGAT 1 cut(s) 705
BsiHKAI GWGCWC 2 cut(s) 131, 1203
BsiHKCI CYCGRG 1 cut(s) 476
BsiSI CCGG 4 cut(s) 178, 420, 575, 1238
BslFI GGGAC 2 cut(s) 404, 706
BslI CCNNNNNNNGG 5 cut(s) 86, 690, 963, 1138, 1227
BsmAI GTCTC 2 cut(s) 47, 675
BsmFI GGGAC 2 cut(s) 404, 706
BsnI GGCC 1 cut(s) 1237
Bso31I GGTCTC 2 cut(s) 47, 675
BsoBI CYCGRG 1 cut(s) 476
Bsp1286I GDGCHC 2 cut(s) 131, 1203
Bsp13I TCCGGA 1 cut(s) 574
Bsp143I GATC 3 cut(s) 507, 540, 800
Bsp19I CCATGG 2 cut(s) 916, 957
BspACI CCGC 4 cut(s) 268, 469, 723, 1110
BspANI GGCC 1 cut(s) 1237
BspCNI CTCAG 3 cut(s) 628, 685, 1011
BspDI ATCGAT 1 cut(s) 705
BspEI TCCGGA 1 cut(s) 574
BspLI GGNNCC 3 cut(s) 152, 314, 682
BspPI GGATC 1 cut(s) 548
BspTNI GGTCTC 2 cut(s) 47, 675
BsrBI CCGCTC 1 cut(s) 469
BsrDI GCAATG 4 cut(s) 59, 172, 454, 1238
BsrFI RCCGGY 1 cut(s) 419
BsrI ACTGG 2 cut(s) 147, 671
BssAI RCCGGY 1 cut(s) 419
BssECI CCNNGG 4 cut(s) 814, 916, 957, 1221
BssMI GATC 3 cut(s) 507, 540, 800
BssNI GRCGYC 1 cut(s) 831
BssT1I CCWWGG 2 cut(s) 916, 957
Bst4CI ACNGT 1 cut(s) 369
Bst6I CTCTTC 1 cut(s) 908
BstACI GRCGYC 1 cut(s) 831
BstAPI GCANNNNNTGC 2 cut(s) 58, 449
BstC8I GCNNGC 5 cut(s) 59, 268, 343, 445, 1218
BstDEI CTNAG 4 cut(s) 615, 672, 925, 1019
BstDSI CCRYGG 3 cut(s) 814, 916, 957
BstEII GGTNACC 1 cut(s) 415
BstENI CCTNNNNNAGG 1 cut(s) 84
BstF5I GGATG 5 cut(s) 196, 445, 477, 490, 778
BstKTI GATC 3 cut(s) 510, 543, 803
BstMAI GTCTC 2 cut(s) 47, 675
BstMBI GATC 3 cut(s) 507, 540, 800
BstMWI GCNNNNNNNGC 6 cut(s) 58, 449, 905, 921, 1075, 1250
BstNSI RCATGY 2 cut(s) 1216, 1220
BstPI GGTNACC 1 cut(s) 415
BstSFI CTRYAG 2 cut(s) 804, 1164
BstV1I GCAGC 2 cut(s) 883, 989
BstV2I GAAGAC 2 cut(s) 669, 834
BstX2I RGATCY 2 cut(s) 540, 800
BstXI CCANNNNNNTGG 1 cut(s) 998
BstYI RGATCY 2 cut(s) 540, 800
Bsu15I ATCGAT 1 cut(s) 705
BsuRI GGCC 1 cut(s) 1237
BsuTUI ATCGAT 1 cut(s) 705
BtgI CCRYGG 3 cut(s) 814, 916, 957
BtgZI GCGATG 1 cut(s) 360
BtsCI GGATG 5 cut(s) 196, 445, 477, 490, 778
BtsI GCAGTG 1 cut(s) 891
BtsIMutI CAGTG 1 cut(s) 891
Cac8I GCNNGC 5 cut(s) 59, 268, 343, 445, 1218
Cfr10I RCCGGY 1 cut(s) 419
ClaI ATCGAT 1 cut(s) 705
CseI GACGC 1 cut(s) 839
Csp6I GTAC 3 cut(s) 647, 844, 1049
CviAII CATG 9 cut(s) 16, 379, 495, 517, 526, 917, 958, 1213, 1217
CviQI GTAC 3 cut(s) 647, 844, 1049
DdeI CTNAG 4 cut(s) 615, 672, 925, 1019
DpnI GATC 3 cut(s) 509, 542, 802
DpnII GATC 3 cut(s) 507, 540, 800
EaeI YGGCCR 1 cut(s) 1235
Eam1104I CTCTTC 1 cut(s) 908
EarI CTCTTC 1 cut(s) 908
Ecl136II GAGCTC 1 cut(s) 129
Eco130I CCWWGG 2 cut(s) 916, 957
Eco24I GRGCYC 1 cut(s) 131
Eco31I GGTCTC 2 cut(s) 47, 675
Eco53kI GAGCTC 1 cut(s) 129
Eco57I CTGAAG 1 cut(s) 450
Eco88I CYCGRG 1 cut(s) 476
Eco91I GGTNACC 1 cut(s) 415
EcoICRI GAGCTC 1 cut(s) 129
EcoNI CCTNNNNNAGG 1 cut(s) 84
EcoO65I GGTNACC 1 cut(s) 415
EcoRI GAATTC 1 cut(s) 406
EcoT14I CCWWGG 2 cut(s) 916, 957
EcoT22I ATGCAT 1 cut(s) 1218
EcoT38I GRGCYC 1 cut(s) 131
ErhI CCWWGG 2 cut(s) 916, 957
FaeI CATG 9 cut(s) 19, 382, 498, 520, 529, 920, 961, 1216, 1220
FaqI GGGAC 2 cut(s) 404, 706
FatI CATG 9 cut(s) 15, 378, 494, 516, 525, 916, 957, 1212, 1216
FauI CCCGC 1 cut(s) 275
FauNDI CATATG 1 cut(s) 118
FbaI TGATCA 1 cut(s) 507
Fnu4HI GCNGC 3 cut(s) 724, 897, 1003
FokI GGATG 5 cut(s) 203, 452, 484, 497, 785
FriOI GRGCYC 1 cut(s) 131
Fsp4HI GCNGC 3 cut(s) 724, 897, 1003
GluI GCNGC 3 cut(s) 724, 897, 1003
GsuI CTGGAG 1 cut(s) 974
HaeIII GGCC 1 cut(s) 1237
HapII CCGG 4 cut(s) 178, 420, 575, 1238
HgaI GACGC 1 cut(s) 839
Hin1I GRCGYC 1 cut(s) 831
Hin1II CATG 9 cut(s) 19, 382, 498, 520, 529, 920, 961, 1216, 1220
HinfI GANTC 6 cut(s) 4, 90, 200, 513, 945, 1184
HpaII CCGG 4 cut(s) 178, 420, 575, 1238
HphI GGTGA 4 cut(s) 409, 578, 950, 1121
Hpy166II GTNNAC 2 cut(s) 649, 891
Hpy188I TCNGA 3 cut(s) 155, 354, 512
Hpy188III TCNNGA 5 cut(s) 575, 757, 838, 1188, 1317
Hpy8I GTNNAC 2 cut(s) 649, 891
HpyAV CCTTC 2 cut(s) 475, 929
HpyCH4III ACNGT 1 cut(s) 369
HpyCH4IV ACGT 4 cut(s) 240, 587, 887, 1051
HpyF10VI GCNNNNNNNGC 6 cut(s) 58, 449, 905, 921, 1075, 1250
HpyF3I CTNAG 4 cut(s) 615, 672, 925, 1019
HpySE526I ACGT 4 cut(s) 240, 587, 887, 1051
Hsp92I GRCGYC 1 cut(s) 831
Hsp92II CATG 9 cut(s) 19, 382, 498, 520, 529, 920, 961, 1216, 1220
Kpn2I TCCGGA 1 cut(s) 574
Ksp22I TGATCA 1 cut(s) 507
Kzo9I GATC 3 cut(s) 507, 540, 800
LmnI GCTCC 3 cut(s) 134, 680, 1097
Lsp1109I GCAGC 2 cut(s) 883, 989
LweI GCATC 4 cut(s) 253, 430, 462, 843
MaeII ACGT 4 cut(s) 240, 587, 887, 1051
MaeIII GTNAC 2 cut(s) 415, 1127
MalI GATC 3 cut(s) 509, 542, 802
MbiI CCGCTC 1 cut(s) 469
MboI GATC 3 cut(s) 507, 540, 800
MboII GAAGA 8 cut(s) 541, 674, 831, 839, 895, 940, 1280, 1297
MflI RGATCY 2 cut(s) 540, 800
MhlI GDGCHC 2 cut(s) 131, 1203
MluCI AATT 5 cut(s) 305, 406, 632, 1008, 1136
MlyI GAGTC 3 cut(s) 84, 209, 522
MmeI TCCRAC 3 cut(s) 764, 1017, 1152
MnlI CCTC 9 cut(s) 17, 80, 90, 914, 957, 1033, 1138, 1231, 1234
Mph1103I ATGCAT 1 cut(s) 1218
MroI TCCGGA 1 cut(s) 574
MroXI GAANNNNTTC 2 cut(s) 322, 881
MseI TTAA 3 cut(s) 243, 1059, 1134
MslI CAYNNNNRTG 2 cut(s) 839, 1302
MspI CCGG 4 cut(s) 178, 420, 575, 1238
MwoI GCNNNNNNNGC 6 cut(s) 58, 449, 905, 921, 1075, 1250
NcoI CCATGG 2 cut(s) 916, 957
NdeI CATATG 1 cut(s) 118
NdeII GATC 3 cut(s) 507, 540, 800
NlaIII CATG 9 cut(s) 19, 382, 498, 520, 529, 920, 961, 1216, 1220
NlaIV GGNNCC 3 cut(s) 152, 314, 682
NmuCI GTSAC 2 cut(s) 415, 1127
NsiI ATGCAT 1 cut(s) 1218
NspI RCATGY 2 cut(s) 1216, 1220
PaeI GCATGC 1 cut(s) 1220
PcsI WCGNNNNNNNCGW 1 cut(s) 407
PdmI GAANNNNTTC 2 cut(s) 322, 881
PfeI GAWTC 3 cut(s) 4, 945, 1184
PkrI GCNGC 3 cut(s) 725, 898, 1004
PleI GAGTC 3 cut(s) 84, 208, 521
PpsI GAGTC 3 cut(s) 84, 208, 521
Psp124BI GAGCTC 1 cut(s) 131
PspEI GGTNACC 1 cut(s) 415
PspN4I GGNNCC 3 cut(s) 152, 314, 682
PsuI RGATCY 2 cut(s) 540, 800
RsaI GTAC 3 cut(s) 648, 845, 1050
RsaNI GTAC 3 cut(s) 647, 844, 1049
RseI CAYNNNNRTG 2 cut(s) 839, 1302
SacI GAGCTC 1 cut(s) 131
SaqAI TTAA 3 cut(s) 243, 1059, 1134
SatI GCNGC 3 cut(s) 724, 897, 1003
Sau3AI GATC 3 cut(s) 507, 540, 800
SchI GAGTC 3 cut(s) 84, 209, 522
SduI GDGCHC 2 cut(s) 131, 1203
SfaNI GCATC 4 cut(s) 253, 430, 462, 843
SfcI CTRYAG 2 cut(s) 804, 1164
SmiMI CAYNNNNRTG 2 cut(s) 839, 1302
SphI GCATGC 1 cut(s) 1220
Sse9I AATT 5 cut(s) 305, 406, 632, 1008, 1136
SsiI CCGC 4 cut(s) 268, 469, 723, 1110
SspI AATATT 1 cut(s) 1279
SstI GAGCTC 1 cut(s) 131
StyI CCWWGG 2 cut(s) 916, 957
TaaI ACNGT 1 cut(s) 369
TaiI ACGT 4 cut(s) 243, 590, 890, 1054
TaqI TCGA 4 cut(s) 69, 303, 410, 705
TasI AATT 5 cut(s) 305, 406, 632, 1008, 1136
TatI WGTACW 1 cut(s) 843
TauI GCSGC 1 cut(s) 726
TfiI GAWTC 3 cut(s) 4, 945, 1184
Tru1I TTAA 3 cut(s) 243, 1059, 1134
Tru9I TTAA 3 cut(s) 243, 1059, 1134
TscAI CASTG 1 cut(s) 898
TseFI GTSAC 2 cut(s) 415, 1127
TseI GCWGC 2 cut(s) 896, 1002
Tsp45I GTSAC 2 cut(s) 415, 1127
TspDTI ATGAA 3 cut(s) 87, 542, 1197
TspGWI ACGGA 1 cut(s) 831
TspRI CASTG 1 cut(s) 898
XagI CCTNNNNNAGG 1 cut(s) 84
XapI RAATTY 2 cut(s) 406, 632
XceI RCATGY 2 cut(s) 1216, 1220
XmnI GAANNNNTTC 2 cut(s) 322, 881
Zsp2I ATGCAT 1 cut(s) 1218
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.